OOIR: Observatory of International Research

Papers

(The H4-Index of Microbiome is 67. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)

Article	Citations
VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses	566
Enlightening the taxonomy darkness of human gut microbiomes with a cultured biobank	501
Review: microbial transformations of human bile acids	359
Gut microbiota from green tea polyphenol-dosed mice improves intestinal epithelial homeostasis and ameliorates experimental colitis	339
Specialized metabolic functions of keystone taxa sustain soil microbiome stability	281
METABOLIC: high-throughput profiling of microbial genomes for functional traits, metabolism, biogeochemistry, and community-scale functional networks	242
Fecal microbiota transplantation protects rotenone-induced Parkinson’s disease mice via suppressing inflammation mediated by the lipopolysaccharide-TLR4 signaling pathway through the microbiota-gut-br	241
Low shifts in salinity determined assembly processes and network stability of microeukaryotic plankton communities in a subtropical urban reservoir	237
Hybrid assembly of an agricultural slurry virome reveals a diverse and stable community with the potential to alter the metabolism and virulence of veterinary pathogens	223
VALENCIA: a nearest centroid classification method for vaginal microbial communities based on composition	218
Disease-induced changes in plant microbiome assembly and functional adaptation	216
Plant developmental stage drives the differentiation in ecological role of the maize microbiome	208
Intestinal microbiota shapes gut physiology and regulates enteric neurons and glia	156
Rhizosphere community selection reveals bacteria associated with reduced root disease	143
An integrated gene catalog and over 10,000 metagenome-assembled genomes from the gastrointestinal microbiome of ruminants	143
Fecal microbiota transfer between young and aged mice reverses hallmarks of the aging gut, eye, and brain	142
Direct impact of commonly used dietary emulsifiers on human gut microbiota	141
From gut microbiota to host appetite: gut microbiota-derived metabolites as key regulators	139
TLR4 regulates RORγt+ regulatory T-cell responses and susceptibility to colon inflammation through interaction with Akkermansia muciniphila	132
Novel insights into the genetically obese (ob/ob) and diabetic (db/db) mice: two sides of the same coin	127
Challenges in exploring and manipulating the human skin microbiome	125
Gut microbiota-derived inosine from dietary barley leaf supplementation attenuates colitis through PPARγ signaling activation	125
Thousands of previously unknown phages discovered in whole-community human gut metagenomes	124
Endometrial microbiota composition is associated with reproductive outcome in infertile patients	123
Host habitat is the major determinant of the gut microbiome of fish	121

Seasonal shifts in the gut microbiome indicate plastic responses to diet in wild geladas	121
Gut microbiota-derived propionate mediates the neuroprotective effect of osteocalcin in a mouse model of Parkinson’s disease	119
Effect of fecal microbiota transplantation on neurological restoration in a spinal cord injury mouse model: involvement of brain-gut axis	116
A fiber-deprived diet causes cognitive impairment and hippocampal microglia-mediated synaptic loss through the gut microbiota and metabolites	114
Parabacteroides produces acetate to alleviate heparanase-exacerbated acute pancreatitis through reducing neutrophil infiltration	114
Prevotella copri increases fat accumulation in pigs fed with formula diets	114
Important ecophysiological roles of non-dominant Actinobacteria in plant residue decomposition, especially in less fertile soils	113
Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers	113
A simplified synthetic community rescues Astragalus mongholicus from root rot disease by activating plant-induced systemic resistance	108
PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data	103
A synthetic probiotic engineered for colorectal cancer therapy modulates gut microbiota	100
Identifying biases and their potential solutions in human microbiome studies	97
Opportunities and challenges of using metagenomic data to bring uncultured microbes into cultivation	94
Eicosapentaenoic and docosahexaenoic acids attenuate hyperglycemia through the microbiome-gut-organs axis in db/db mice	92
Lactobacillus murinus alleviate intestinal ischemia/reperfusion injury through promoting the release of interleukin-10 from M2 macrophages via Toll-like receptor 2 signaling	91
Multifaceted roles of flavonoids mediating plant-microbe interactions	90
The microbiome and mosquito vectorial capacity: rich potential for discovery and translation	90
The microbiota-gut-brain axis participates in chronic cerebral hypoperfusion by disrupting the metabolism of short-chain fatty acids	89
Towards enhancing coral heat tolerance: a “microbiome transplantation” treatment using inoculations of homogenized coral tissues	86
Regulation of blood–brain barrier integrity by microbiome-associated methylamines and cognition by trimethylamine N-oxide	85
The phyllosphere microbiome shifts toward combating melanose pathogen	83
Gut microbiome variation modulates the effects of dietary fiber on host metabolism	82
Enhanced mutualistic symbiosis between soil phages and bacteria with elevated chromium-induced environmental stress	80
The microbial metabolite p-Cresol induces autistic-like behaviors in mice by remodeling the gut microbiota	80
Protists as main indicators and determinants of plant performance	79
Depletion of acetate-producing bacteria from the gut microbiota facilitates cognitive impairment through the gut-brain neural mechanism in diabetic mice	79
Gut microbiota-derived ursodeoxycholic acid from neonatal dairy calves improves intestinal homeostasis and colitis to attenuate extended-spectrum β-lactamase-producing enteroaggregative Escherichia co	77
Intestinal mycobiota in health and diseases: from a disrupted equilibrium to clinical opportunities	76
Iron status influences non-alcoholic fatty liver disease in obesity through the gut microbiome	75
Viral community-wide auxiliary metabolic genes differ by lifestyles, habitats, and hosts	75
Long-read metagenomic sequencing reveals shifts in associations of antibiotic resistance genes with mobile genetic elements from sewage to activated sludge	74
Joint contributions of the gut microbiota and host genetics to feed efficiency in chickens	73
Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies	73
Metagenomic analysis reveals the shared and distinct features of the soil resistome across tundra, temperate prairie, and tropical ecosystems	73
Lessons learned from the prenatal microbiome controversy	73
Ultra-accurate microbial amplicon sequencing with synthetic long reads	72
Gut dysbiosis promotes prostate cancer progression and docetaxel resistance via activating NF-κB-IL6-STAT3 axis	70
Antibiotic-associated dysbiosis affects the ability of the gut microbiota to control intestinal inflammation upon fecal microbiota transplantation in experimental colitis models	70
Spatial heterogeneity of bacterial colonization across different gut segments following inter-species microbiota transplantation	70
Commensal microbe-derived acetate suppresses NAFLD/NASH development via hepatic FFAR2 signalling in mice	70
Gut microbiota-derived metabolites mediate the neuroprotective effect of melatonin in cognitive impairment induced by sleep deprivation	69
Integrated meta-omics reveals new ruminal microbial features associated with feed efficiency in dairy cattle	68
Phylogenies of the 16S rRNA gene and its hypervariable regions lack concordance with core genome phylogenies	67